Strain identifier

BacDive ID: 457

Type strain: Yes

Species: Marinobacterium stanieri

Strain Designation: 146

Strain history: CIP <- 2000, CCUG <- P. Baumann, Univ. of California, Davis, USA: strain 146

NCBI tax ID(s): 49186 (species)

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General

@ref: 2952

BacDive-ID: 457

DSM-Number: 7027

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile

description: Marinobacterium stanieri 146 is an obligate aerobe, mesophilic, motile bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 49186
  • Matching level: species

strain history

@refhistory
2952<- ATCC <- P. Baumann; 146
123294CIP <- 2000, CCUG <- P. Baumann, Univ. of California, Davis, USA: strain 146

doi: 10.13145/bacdive457.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Alteromonadales
  • family: Alteromonadaceae
  • genus: Marinobacterium
  • species: Marinobacterium stanieri
  • full scientific name: Marinobacterium stanieri (Baumann et al. 1983) Satomi et al. 2002

  • synonyms

    • @ref: 20215
    • synonym: Pseudomonas stanieri

@ref: 2952

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Alteromonadales

family: Alteromonadaceae

genus: Marinobacterium

species: Marinobacterium stanieri

full scientific name: Marinobacterium stanieri (Baumann et al. 1983) Satomi et al. 2002

strain designation: 146

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.085
69480100negative
123294yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2952BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
2952SEA WATER AGAR (DSMZ Medium 246)yeshttps://mediadive.dsmz.de/medium/246Name: SEA WATER AGAR (DSMZ Medium 246) Composition: Agar 20.0 g/l Peptone 10.0 g/l Beef extract 10.0 g/l Tap water Sea water
38639Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
123294CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
2952positivegrowth25mesophilic
38639positivegrowth25mesophilic
46421positivegrowth26mesophilic
123294positivegrowth10-41
123294nogrowth5psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123294
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.991

halophily

@refsaltgrowthtested relationconcentration
123294NaClpositivegrowth4-10 %
123294NaClnogrowth0 %
123294NaClnogrowth2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12329416947citrate-carbon source
1232944853esculin-hydrolysis
12329417632nitrate-reduction
12329416301nitrite-reduction
12329417632nitrate-respiration

metabolite production

  • @ref: 123294
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
123294oxidase+
123294beta-galactosidase-3.2.1.23
123294alcohol dehydrogenase-1.1.1.1
123294gelatinase+/-
123294amylase-
123294caseinase-3.4.21.50
123294catalase-1.11.1.6
123294tween esterase-
123294lecithinase-
123294lipase-
123294lysine decarboxylase-4.1.1.18
123294ornithine decarboxylase-4.1.1.17
123294protease-
123294tryptophan deaminase-
123294urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123294-++--++---++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123294------------+--------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample type
2952seawater
46421Seawater
123294Environment, Seawater

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_102128.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_9543;96_41322;97_52747;98_69675;99_102128&stattab=map
  • Last taxonomy: Oceanospirillaceae
  • 16S sequence: X92176
  • Sequence Identity:
  • Total samples: 3
  • aquatic counts: 3

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
29521Risk group (German classification)
1232941Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Marinobacterium stanieri gene for 16S rRNA, strain: ATCC 27130AB0213671517ena49186
20218P.stanieri 16S rRNA geneX921761497ena49186

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Marinobacterium stanieri DSM 7027GCA_900155945scaffoldncbi49186
66792Marinobacterium stanieri strain DSM 702749186.3wgspatric49186
66792Marinobacterium stanieri DSM 70272681813548draftimg49186

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes93.924no
flagellatedyes95.296no
gram-positiveno99.138no
anaerobicno97.318no
aerobicyes73.424no
halophileyes85.585no
spore-formingno95.809no
thermophileno99.643yes
glucose-utilyes69.395no
glucose-fermentno84.906no

External links

@ref: 2952

culture collection no.: DSM 7027, ATCC 27130, CCUG 16021, CIP 106697, LMG 6847, CECT 7202

straininfo link

  • @ref: 70136
  • straininfo: 4330

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19406814Marinobacterium nitratireducens sp. nov. and Marinobacterium sediminicola sp. nov., isolated from marine sediment.Huo YY, Xu XW, Cao Y, Wang CS, Zhu XF, Oren A, Wu MInt J Syst Evol Microbiol10.1099/ijs.0.005751-02009Alteromonadaceae/*classification/genetics/isolation & purification/physiology, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Genotype, Geologic Sediments/*microbiology, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA, Species SpecificityGenetics
Phylogeny19643903Marinobacterium maritimum sp. nov., a marine bacterium isolated from Arctic sediment.Kim SJ, Park SJ, Yoon DN, Park BJ, Choi BR, Lee DH, Roh Y, Rhee SKInt J Syst Evol Microbiol10.1099/ijs.0.009134-02009Alteromonadaceae/*classification/genetics/*isolation & purification/metabolism, Arctic Regions, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/*microbiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiologyMetabolism
Phylogeny34059969Marinobacterium alkalitolerans sp. nov., with nitrate reductase and urease activity isolated from green algal mat collected from a solar saltern.Pinnaka AK, Tanuku NRS, Gupta V, Vasudeva G, Pydi S, Kashyap N, Behera S, Ganta SKAntonie Van Leeuwenhoek10.1007/s10482-021-01582-y2021Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/analysis, India, Nitrate Reductase, Oceanospirillaceae/*classification/isolation & purification, Phospholipids/analysis, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone, UreaseEnzymology
Phylogeny35460040Marinobacterium arenosum sp. nov., isolated from a coastal sand.Lee Y, Weerawongwiwat V, Kim JH, Yoon JH, Lee JS, Sukhoom A, Kim WArch Microbiol10.1007/s00203-022-02900-22022*Alteromonadaceae, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, *Sand, Sequence Analysis, DNA, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2952Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7027)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7027
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
38639Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18856
46421Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 16021)https://www.ccug.se/strain?id=16021
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68382Automatically annotated from API zym
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
70136Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4330.1StrainInfo: A central database for resolving microbial strain identifiers
123294Curators of the CIPCollection of Institut Pasteur (CIP 106697)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106697